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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatggcttgattgttcaacttggtgccaatttgcttaccaactgtcatgataactttgagtgtgctacatttttcagGCGGCTTAGTAGAAACAAGTTGTCTGGACAGATCCCTGGGCTTGTTGCAAATCTTACAGGTCTTTCATTCTT

Basic information

species Vitis vinifera
transcript Vv10s0003g01490.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G30050.1 (Glycine max), 3'ss of exon 4
---------------------------------gtaagtatggc-ttgattgttcaacttggtgccaatttgcttaccaactgtca--tgataactttgagtgtgctacatttttcagGCGGCTTAGTAGAAACAAGTTGTCTGGACAGATCCCTGGGCTTGTTGCAAATCTTACAGGTCTTTCATTCTT
                                 || | | |    ||   | ||   |||  |    | |   |  | || |||    |    | |||     ||||   | |||||||||||| || | ||| ||  | ||||||||||| |||  ||||||||| ||||| ||||| |||||||||||
gtgagtgtggtgtgacaaatagattcaacagtggtgatttttttgttacctatttggcttattcagtagtctttctctaattgtttacttcctaatttattcatgctgagtatttcagGCGGCTCAGCAAAAATAAACTATCTGGACAGATTCCTCAGCTTGTTGCTAATCTCACAGGCCTTTCATTCTT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110713153|gb|EE088826.1|EE088826
EST:     ATTGGTGAAATTCCAAGCTCGTTGGGCTTGCTGACTCATCTAAATTACTT                         GCGGCTTAATANAAACAAGTTGTCTGGACAGATCCCTGGGCTTGTTGCAAA
genomic: ATTGGTGAAATTCCAAGCTCATTGGGCTTGCTGACTCATCTAAATTACTTgtaagtatgg ... catttttcagGCGGCTTAGTAGAAACAAGTTGTCTGGACAGATCCCTGGGCTTGTTGCAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgccaatttgcttaccaactgtcatgataactttgagtgtgctacatttttcagGCGGCTTAGTAGAAACAAGTTGTCTGGACAGATCCCTGGGCTTGTTGCAAATCTTACAGGTCTTTCATTCTT
                         tgataac  putative branch site (score: 2)
                                             catttttc  putative PPT
                                           tacattttt  TA-rich tract